AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05787


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 23 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATAGCTCTTTAGCATTATT+AGG 0.150756 3.1:-44808261 None:intergenic
ATTATTGGTGGTTCAATATC+TGG 0.182940 3.1:-44808030 None:intergenic
TGATTACTTTGTTACCTTGA+TGG 0.308348 3.1:-44808286 None:intergenic
ACTGTGTTAATCACCATTAT+TGG 0.325856 3.1:-44808045 None:intergenic
ATAGCTCTTTAGCATTATTA+GGG 0.330839 3.1:-44808260 None:intergenic
AGATATTGAACCACCAATAA+TGG 0.352515 3.1:+44808032 MS.gene05787:CDS
TAATAATGCTAAAGAGCTAT+TGG 0.409363 3.1:+44808263 MS.gene05787:CDS
ATTATTAGGGTAAGTGTCTA+AGG 0.410530 3.1:-44808247 None:intergenic
CACACAAATATGTCCACTTT+GGG 0.444982 3.1:-44807997 None:intergenic
CTTCTAAATTTGCTAAGCAT+TGG 0.454514 3.1:+44808166 MS.gene05787:CDS
ACACACAAATATGTCCACTT+TGG 0.492778 3.1:-44807998 None:intergenic
GCCATTCTGCAAGAGATTCA+AGG 0.500880 3.1:+44808191 MS.gene05787:CDS
ACCTTGAATCTCTTGCAGAA+TGG 0.504885 3.1:-44808192 None:intergenic
GTGTTAATCACCATTATTGG+TGG 0.509771 3.1:-44808042 None:intergenic
TAAAGAGCTATTGGCCATCA+AGG 0.510787 3.1:+44808272 MS.gene05787:CDS
AGTGGACATATTTGTGTGTA+CGG 0.534171 3.1:+44808002 MS.gene05787:CDS
AAATACGCACTTGGCGACCT+AGG 0.544031 3.1:-44808219 None:intergenic
TACACACTAAGCTTCTCTGT+TGG 0.555790 3.1:-44808093 None:intergenic
GTGTATCTTTCAGATGATGC+TGG 0.557262 3.1:+44808111 MS.gene05787:CDS
TAACACAGTATTATCTGTGA+TGG 0.561776 3.1:+44808059 MS.gene05787:CDS
TGAGAACATGCTACCCAAAG+TGG 0.566397 3.1:+44807984 MS.gene05787:CDS
AAGGTCTTGAAATACGCACT+TGG 0.624239 3.1:-44808228 None:intergenic
AGAGATTCAAGGTTGAACCT+AGG 0.664021 3.1:+44808202 MS.gene05787:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATAGCTCTTTAGCATTATT+AGG - chr3.1:44808264-44808283 None:intergenic 25.0%
! ATAGCTCTTTAGCATTATTA+GGG - chr3.1:44808263-44808282 None:intergenic 25.0%
! TAATAATGCTAAAGAGCTAT+TGG + chr3.1:44808263-44808282 MS.gene05787:CDS 25.0%
!! TACATTTTATGCTCTTTTAG+AGG + chr3.1:44808143-44808162 MS.gene05787:CDS 25.0%
ACTGTGTTAATCACCATTAT+TGG - chr3.1:44808048-44808067 None:intergenic 30.0%
AGATATTGAACCACCAATAA+TGG + chr3.1:44808032-44808051 MS.gene05787:CDS 30.0%
ATTATTAGGGTAAGTGTCTA+AGG - chr3.1:44808250-44808269 None:intergenic 30.0%
TAACACAGTATTATCTGTGA+TGG + chr3.1:44808059-44808078 MS.gene05787:CDS 30.0%
! ATTATTGGTGGTTCAATATC+TGG - chr3.1:44808033-44808052 None:intergenic 30.0%
!! CTTCTAAATTTGCTAAGCAT+TGG + chr3.1:44808166-44808185 MS.gene05787:CDS 30.0%
ACACACAAATATGTCCACTT+TGG - chr3.1:44808001-44808020 None:intergenic 35.0%
AGTGGACATATTTGTGTGTA+CGG + chr3.1:44808002-44808021 MS.gene05787:CDS 35.0%
CACACAAATATGTCCACTTT+GGG - chr3.1:44808000-44808019 None:intergenic 35.0%
GTGTTAATCACCATTATTGG+TGG - chr3.1:44808045-44808064 None:intergenic 35.0%
AAGGTCTTGAAATACGCACT+TGG - chr3.1:44808231-44808250 None:intergenic 40.0%
ACCTTGAATCTCTTGCAGAA+TGG - chr3.1:44808195-44808214 None:intergenic 40.0%
AGAGATTCAAGGTTGAACCT+AGG + chr3.1:44808202-44808221 MS.gene05787:CDS 40.0%
GTGTATCTTTCAGATGATGC+TGG + chr3.1:44808111-44808130 MS.gene05787:CDS 40.0%
TACACACTAAGCTTCTCTGT+TGG - chr3.1:44808096-44808115 None:intergenic 40.0%
GCCATTCTGCAAGAGATTCA+AGG + chr3.1:44808191-44808210 MS.gene05787:CDS 45.0%
TGAGAACATGCTACCCAAAG+TGG + chr3.1:44807984-44808003 MS.gene05787:CDS 45.0%
AAATACGCACTTGGCGACCT+AGG - chr3.1:44808222-44808241 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 44807981 44808293 44807981 ID=MS.gene05787
chr3.1 mRNA 44807981 44808293 44807981 ID=MS.gene05787.t1;Parent=MS.gene05787
chr3.1 exon 44807981 44808293 44807981 ID=MS.gene05787.t1.exon1;Parent=MS.gene05787.t1
chr3.1 CDS 44807981 44808293 44807981 ID=cds.MS.gene05787.t1;Parent=MS.gene05787.t1
Gene Sequence

>MS.gene05787

ATATGAGAACATGCTACCCAAAGTGGACATATTTGTGTGTACGGCAAATCCAGATATTGAACCACCAATAATGGTGATTAACACAGTATTATCTGTGATGGCATATGATTATCCAACAGAGAAGCTTAGTGTGTATCTTTCAGATGATGCTGGATCAGATATTACATTTTATGCTCTTTTAGAGGCTTCTAAATTTGCTAAGCATTGGTTGCCATTCTGCAAGAGATTCAAGGTTGAACCTAGGTCGCCAAGTGCGTATTTCAAGACCTTAGACACTTACCCTAATAATGCTAAAGAGCTATTGGCCATCAAG

Protein sequence

>MS.gene05787.t1

IUEHATQSGHICVYGKSRYUTTNNGDUHSIICDGIULSNREAUCVSFRUCWIRYYILCSFRGFUICUALVAILQEIQGUTUVAKCVFQDLRHLPUUCURAIGHQ